MmuINT0122222 @ mm10
Intron Retention
Gene
ENSMUSG00000059481 | Plg
Description
plasminogen [Source:MGI Symbol;Acc:MGI:97620]
Coordinates
chr17:12408990-12410963:+
Coord C1 exon
chr17:12408990-12409113
Coord A exon
chr17:12409114-12410885
Coord C2 exon
chr17:12410886-12410963
Length
1772 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
TCTTGTTTTCTGTCCCCCAGATT
3' ss Score
11.17
Exon sequences
Seq C1 exon
CATCAGCATCATCCTTTGAGTGCGGGAAACCTCAGGTGGAACCGAAGAAATGCCCTGGGAGGGTGGTGGGTGGCTGCGTGGCCAACCCTCACTCCTGGCCCTGGCAAATCAGCCTTAGAACAAG
Seq A exon
GTAAGGATTTGCAGAAACATTTCCTACCTGTCTGTGTGAGCTTTGCAGAGCCTTTATTCTGAGCCTATGCCACTGAGCTTCAGTGCCCGCTCTCCTGTTCTGCTAATATAAGGAGTATATACAGTTACATAAAGTTCTGAAAGATGTCTTCTTAGGTTCTCTACTTTGAACATGACCAAAAATAGTATTTAAGGAAAACCAAAACAAATCCGGGATGCTGTCATTAAATTCTGTAAATATAACGAACCATGTGACTTGATGACATCCCCAGGAAACATGGTACTTTAGGGGTTCGTACACTCCATGGCTGTTGTAAAATGAAAGAAACATTTTCACAAATGAGATGCTGTGCAGCTTGGGGCTCACAGAGGAGCTGGCCTGTCAAAGATGCAGGTGTCTGAGAATCCTGTGTGCCTTTTTTGGGGGGAGGGGTGACCCCTTGAGTTTAATGCAGAGGCTGCTTGTGCAATTCTCAAACCCACGAGCAAGCCAGCTTGTGACTGCCCTAGTTTAAGAGATGCATCCGAGCCTGTGGAAGCGGGGCCACAAGCGTCGTTAGAACACATCTGCAATCCTTAATTCCCTTTTCCTGGGCTTGACTCATAAAGTGCGGTGTGGAGCAGGCTCATCGAATGTCAGCTTGCCTGGCTCATTTCCATAGCACTGGGCCTGCTCCATTGCTGTCACCGTGCCCTCTGTGAGCTTGCAGAAACCCACTAACAGTTGTGGACATGGATGGCTGAACCGTCTCTGTTACTGAGTTGTTTTTTAAGATTTATTTTTCTTTTATTTATGAGTGCTTGTCTGCATGTACAAATGTGCACCATGTGTGTGCCTGGTGCCCCTGGAGACCAGATCCCTTGGAACTGGATCTACATGGTTGTGAGCCATCACGTATGAGCTGGGAACCGAACTTGGATCCTCTAGAAGAGCAGTCAGTGTTTTTTTTTTCCCAAAGATTTATTTCTTTATTTCATGTATGTGACTACACTGTTGCTGTCTTCAGGCAGACACACCAAAAGAGGGCATTGGATCCCATTACAGATGGCTCTGAGCCACCATGTGGTTGCTGGGAATTGAACTCAGGACCTCTAGAAGAGCAGTCGTGCTTTTAACCACTTAGCTATCTCTCCAGCCACAGAATTTTTTTTTTCTTGACTTAACTACTTAATAACTCCTTGCTGTAGGCTCTTTACCTGCCAAATAGAATTTGTTTCCTTCTGAAATTGAACAGTGGTTTATTTTCTGACTGTCTCCCCCCCACCCCGCTTTTTCCCTGACCTGATCCTACACACTAAGTTATTTGCATTTCTTTTCTGACCATTACACCCTGGTTGGGAGTTGGTGACCTCATTAACCCACATTACTGCTACTGGGGTCACATTTGACAAAGGATAATTCATGAAGACCGTTTGCAAAGCCCTAGCCAATAAGGAATAAAGGCAGCCTCAAGGGTAGGTTTGGACTGGTGGTTTATGTTGGGGTCCAGGGCTAACGGGACAAAGTGCGGATACAGGACTTCATGTTGGAGTCACTGCCTCTGCTCCATTAGGACAGGTGGCATCCAAGACTCTCCCAGATATCTTAAGATTGGTCTGGATGGATGGTACTGTGTCTCTACCATCCTGCACGCAGGCTGGCTGGCAGGCCTTTCTGCTGGGAACAGAAACAGTAAGGAAAAGAGCGAATGAACGTGCCTTTCTGATTTTCTGTGCAACCGAATGGGACAAAACCTCTGGCCTAAATGAAAGTTCTTGTTTTCTGTCCCCCAG
Seq C2 exon
ATTTACCGGACAGCACTTCTGTGGCGGTACTTTAATAGCCCCAGAGTGGGTTCTGACTGCTGCCCACTGTTTGGAGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000059481:ENSMUST00000014578:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=PU(21.3=47.6)
A:
NA
C2:
PF0008921=Trypsin=FE(11.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATCAGCATCATCCTTTGAGTGC
R:
CCAAACAGTGGGCAGCAGTC
Band lengths:
198-1970
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types